{"id":"https://openalex.org/W4391694709","doi":"https://doi.org/10.1093/bioinformatics/btae074","title":"pycofitness\u2014Evaluating the fitness landscape of RNA and protein sequences","display_name":"pycofitness\u2014Evaluating the fitness landscape of RNA and protein sequences","publication_year":2024,"publication_date":"2024-02-01","ids":{"openalex":"https://openalex.org/W4391694709","doi":"https://doi.org/10.1093/bioinformatics/btae074","pmid":"https://pubmed.ncbi.nlm.nih.gov/38335928"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae074","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae074","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae074/56644241/btae074.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae074/56644241/btae074.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085366265","display_name":"Fabrizio Pucci","orcid":"https://orcid.org/0000-0003-2916-022X"},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":true,"raw_author_name":"Fabrizio Pucci","raw_affiliation_strings":["Computational Biology and Bioinformatics, Universit\u00e9 Libre de Bruxelles , 1050 Brussels, Belgium","Interuniversity Institute of Bioinformatics in Brussels , 1050 Brussels, Belgium"],"affiliations":[{"raw_affiliation_string":"Computational Biology and Bioinformatics, Universit\u00e9 Libre de Bruxelles , 1050 Brussels, Belgium","institution_ids":["https://openalex.org/I132053463"]},{"raw_affiliation_string":"Interuniversity Institute of Bioinformatics in Brussels , 1050 Brussels, Belgium","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060058033","display_name":"Mehari B. Zerihun","orcid":null},"institutions":[{"id":"https://openalex.org/I4210113364","display_name":"John von Neumann Institute for Computing","ror":"https://ror.org/02zmk8084","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I1305996414","https://openalex.org/I1305996414","https://openalex.org/I169556180","https://openalex.org/I171892758","https://openalex.org/I2801876189","https://openalex.org/I4210113364"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Mehari B Zerihun","raw_affiliation_strings":["John von Neumann Institute for Computing, J\u00fclich Supercomputer Centre , 52428 J\u00fclich, Germany"],"affiliations":[{"raw_affiliation_string":"John von Neumann Institute for Computing, J\u00fclich Supercomputer Centre , 52428 J\u00fclich, Germany","institution_ids":["https://openalex.org/I4210113364"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073330873","display_name":"Marianne Rooman","orcid":"https://orcid.org/0000-0002-3810-7802"},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Marianne Rooman","raw_affiliation_strings":["Computational Biology and Bioinformatics, Universit\u00e9 Libre de Bruxelles , 1050 Brussels, Belgium","Interuniversity Institute of Bioinformatics in Brussels , 1050 Brussels, Belgium"],"affiliations":[{"raw_affiliation_string":"Computational Biology and Bioinformatics, Universit\u00e9 Libre de Bruxelles , 1050 Brussels, Belgium","institution_ids":["https://openalex.org/I132053463"]},{"raw_affiliation_string":"Interuniversity Institute of Bioinformatics in Brussels , 1050 Brussels, Belgium","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089380775","display_name":"Alexander Schug","orcid":"https://orcid.org/0000-0002-0534-502X"},"institutions":[{"id":"https://openalex.org/I4210113364","display_name":"John von Neumann Institute for Computing","ror":"https://ror.org/02zmk8084","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I1305996414","https://openalex.org/I1305996414","https://openalex.org/I169556180","https://openalex.org/I171892758","https://openalex.org/I2801876189","https://openalex.org/I4210113364"]},{"id":"https://openalex.org/I62318514","display_name":"University of Duisburg-Essen","ror":"https://ror.org/04mz5ra38","country_code":"DE","type":"education","lineage":["https://openalex.org/I62318514"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Alexander Schug","raw_affiliation_strings":["Department of Biology, University of Duisburg-Essen , D-45141 Essen, Germany","John von Neumann Institute for Computing, J\u00fclich Supercomputer Centre , 52428 J\u00fclich, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Biology, University of Duisburg-Essen , D-45141 Essen, Germany","institution_ids":["https://openalex.org/I62318514"]},{"raw_affiliation_string":"John von Neumann Institute for Computing, J\u00fclich Supercomputer Centre , 52428 J\u00fclich, Germany","institution_ids":["https://openalex.org/I4210113364"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5085366265"],"corresponding_institution_ids":["https://openalex.org/I132053463"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":4.4048,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.94030516,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"40","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9940999746322632,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/fitness-landscape","display_name":"Fitness landscape","score":0.7617958784103394},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.5701918005943298},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5255205631256104},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3945111930370331},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3808610439300537},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2751985788345337},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1467139720916748},{"id":"https://openalex.org/keywords/sociology","display_name":"Sociology","score":0.11836069822311401},{"id":"https://openalex.org/keywords/demography","display_name":"Demography","score":0.06421074271202087}],"concepts":[{"id":"https://openalex.org/C91852762","wikidata":"https://www.wikidata.org/wiki/Q3307742","display_name":"Fitness landscape","level":3,"score":0.7617958784103394},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.5701918005943298},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5255205631256104},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3945111930370331},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3808610439300537},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2751985788345337},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1467139720916748},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.11836069822311401},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.06421074271202087},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btae074","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae074","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae074/56644241/btae074.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38335928","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38335928","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:dipot.ulb.ac.be:2013/369331","is_oa":true,"landing_page_url":"http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/369331","pdf_url":"https://dipot.ulb.ac.be/dspace/bitstream/2013/369331/1/doi_352975.pdf","source":{"id":"https://openalex.org/S4306401063","display_name":"D\u00e9p\u00f4t institutionnel de l'Universit\u00e9 libre de Bruxelles (Universit\u00e9 Libre de Bruxelles)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I132053463","host_organization_name":"Universit\u00e9 Libre de Bruxelles","host_organization_lineage":["https://openalex.org/I132053463"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 40 (2","raw_type":"info:ulb-repo/semantics/openurl/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10881095","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10881095","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10881095/pdf/btae074.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae074","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae074","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae074/56644241/btae074.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321390","display_name":"Fonds De La Recherche Scientifique - FNRS","ror":"https://ror.org/03q83t159"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4391694709.pdf"},"referenced_works_count":42,"referenced_works":["https://openalex.org/W1608826984","https://openalex.org/W1686007471","https://openalex.org/W1861406683","https://openalex.org/W1979762151","https://openalex.org/W1991722888","https://openalex.org/W2008545402","https://openalex.org/W2051545676","https://openalex.org/W2061042699","https://openalex.org/W2085036090","https://openalex.org/W2109839728","https://openalex.org/W2121444044","https://openalex.org/W2131313323","https://openalex.org/W2137566700","https://openalex.org/W2141152740","https://openalex.org/W2245592118","https://openalex.org/W2342307854","https://openalex.org/W2470723632","https://openalex.org/W2583666712","https://openalex.org/W2593641128","https://openalex.org/W2770026599","https://openalex.org/W2781028774","https://openalex.org/W2804523481","https://openalex.org/W2903660030","https://openalex.org/W2937346943","https://openalex.org/W2950410860","https://openalex.org/W2963628820","https://openalex.org/W2964915524","https://openalex.org/W2971543527","https://openalex.org/W2998686174","https://openalex.org/W3044778276","https://openalex.org/W3087371631","https://openalex.org/W3094436818","https://openalex.org/W3100163799","https://openalex.org/W3100264342","https://openalex.org/W3100348855","https://openalex.org/W3100820581","https://openalex.org/W3124262119","https://openalex.org/W3135175179","https://openalex.org/W3204784544","https://openalex.org/W3208082951","https://openalex.org/W3209435229","https://openalex.org/W4200321201"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W4391375266","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W2013243191"],"abstract_inverted_index":{"https://github.com/KIT-MBS/pycofitness.":[0]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":7}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
